If more than 50 genes/sequences are provided as input, then the associated running time can take some time. Therefore it is advisable to provide an email-address in case you are running the Interactive Phylogenetics Module with more than 50 genes. After processing you will be send an email with a link to the created phylogenetic tree.
The selection modi are exclusive: please choose either Gene selection or Species selection.
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":"";
$selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":"";
$num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''
include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ), 'gf_id' => 'HOM05D001096', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001096' ), 'data_identifier' => 'HOM05D001096', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001096', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p08600' => 'bna', 'A02p06780' => 'bna', 'A03p11440' => 'bna', 'A06p04850' => 'bna', 'A06p21110' => 'bna', 'A07p01020' => 'bna', 'A09p66210' => 'bna', 'A10p17090' => 'bna', 'Aa31LG4G15170' => 'aar', 'Aa31LG5G21910' => 'aar', 'Aa31LG5G7500' => 'aar', 'Aa31LG8G16690' => 'aar', 'Aa31sc360G40' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.406' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4560' => 'aag', 'Actinidia07711' => 'ach', 'Actinidia20461' => 'ach', 'Actinidia25821' => 'ach', 'Actinidia26733' => 'ach', 'Actinidia29211' => 'ach', 'Actinidia32133' => 'ach', 'Actinidia37233' => 'ach', 'Ah.03g144300' => 'amhyb', 'Ah.04g160400' => 'amhyb', 'Ah.08g218960' => 'amhyb', 'Ah.10g033460' => 'amhyb', 'Ah.16g107400' => 'amhyb', 'AL1G18060' => 'aly', 'AL3G48520' => 'aly', 'AL4G37000' => 'aly', 'AL5G24760' => 'aly', 'AL7G22960' => 'aly', 'AL7G46930' => 'aly', 'AL8G36410' => 'aly', 'Aqoxy1G00918' => 'aox', 'Aqoxy2G02013' => 'aox', 'Aqoxy4G03005' => 'aox', 'Aqoxy5G02743' => 'aox', 'Aqoxy6G01781' => 'aox', 'Aqoxy7G01306' => 'aox', 'Aqoxy7G02529' => 'aox', 'arahy.Tifrunner.gnm1.ann1.949I90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2H9V2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AMYT3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EF8K28' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I1SMWM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RH5LET' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RPA6KE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T6QNA0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U31AAY' => 'arhy', 'AT1G07770' => 'ath', 'AT2G19720' => 'ath', 'AT2G39590' => 'ath', 'AT3G46040' => 'ath', 'AT4G29430' => 'ath', 'AT5G59850' => 'ath', 'ATR0222G025' => 'atr', 'ATR0564G213' => 'atr', 'ATR0789G020' => 'atr', 'Atru.chr12.512' => 'acertr', 'Atru.chr3.3827' => 'acertr', 'Atru.chr7.1527' => 'acertr', 'Atru.chr8.1929' => 'acertr', 'AUR62000798' => 'cqu', 'AUR62001831' => 'cqu', 'AUR62005170' => 'cqu', 'AUR62009619' => 'cqu', 'AUR62038379' => 'cqu', 'AUR62040947' => 'cqu', 'BcaB02g06705' => 'bca', 'BcaB03g13379' => 'bca', 'BcaB03g16753' => 'bca', 'BcaB05g22593' => 'bca', 'BcaB08g36214' => 'bca', 'BcaC01g01940' => 'bca', 'BcaC01g06542' => 'bca', 'BcaC04g19642' => 'bca', 'BcaC06g36611' => 'bca', 'BcaC07g41979' => 'bca', 'BcaC07g42495' => 'bca', 'BcaC09g51728' => 'bca', 'BolC1t00965H' => 'bol', 'BolC2t07305H' => 'bol', 'BolC3t19296H' => 'bol', 'BolC5t29342H' => 'bol', 'BolC7t40627H' => 'bol', 'BolC8t47126H' => 'bol', 'BolC8t52566H' => 'bol', 'BolC9t58106H' => 'bol', 'BraA01t00811Z' => 'bra', 'BraA02t05757Z' => 'bra', 'BraA03t10458Z' => 'bra', 'BraA06t23689Z' => 'bra', 'BraA07t27903Z' => 'bra', 'BraA08t35457Z' => 'bra', 'BraA09t41959Z' => 'bra', 'BraA10t43791Z' => 'bra', 'C01p10070' => 'bna', 'C02p12070' => 'bna', 'C03p13240' => 'bna', 'C03p70310' => 'bna', 'C05p05720' => 'bna', 'C07p02180' => 'bna', 'C08p03280' => 'bna', 'C08p50380' => 'bna', 'C09p52360' => 'bna', 'CAN.G1606.1' => 'can', 'CAN.G1668.8' => 'can', 'CAN.G319.14' => 'can', 'CAN.G357.11' => 'can', 'CAN.G405.9' => 'can', 'CANSAT25G0885' => 'cansat', 'CANSAT56G0828' => 'cansat', 'CANSAT56G1771' => 'cansat', 'CANSAT56G3255' => 'cansat', 'CARHR007590' => 'chi', 'CARHR110170' => 'chi', 'CARHR123820' => 'chi', 'CARHR154400' => 'chi', 'CARHR154410' => 'chi', 'CARHR237250' => 'chi', 'CARHR273440' => 'chi', 'Carub.0001s0714' => 'cru', 'Carub.0003s3400' => 'cru', 'Carub.0004s2166' => 'cru', 'Carub.0005s1190' => 'cru', 'Carub.0007s1111' => 'cru', 'Carub.0008s2061' => 'cru', 'Ca_06986_v3' => 'car', 'Ca_17390_v3' => 'car', 'Ca_17652_v3' => 'car', 'Ca_25565_v3' => 'car', 'CBR_g22318' => 'cbr', 'Cc01_g12530' => 'ccan', 'Cc02_g08240' => 'ccan', 'Cc04_g02190' => 'ccan', 'CDE02G0910' => 'cde', 'CDE02G4707' => 'cde', 'CDE05G1205' => 'cde', 'CDE09G0546' => 'cde', 'CDE11G0965' => 'cde', 'Cfa001511' => 'cfa', 'Cfa003131' => 'cfa', 'Cfa011454' => 'cfa', 'Cfa017431' => 'cfa', 'Cfa023227' => 'cfa', 'Ciclev10010805m.g' => 'ccl', 'Ciclev10029569m.g' => 'ccl', 'Ciclev10029572m.g' => 'ccl', 'Ciclev10030226m.g' => 'ccl', 'Ciclev10033065m.g' => 'ccl', 'CiPaw.01G283600' => 'cil', 'CiPaw.02G145200' => 'cil', 'CiPaw.02G181800' => 'cil', 'CiPaw.03G219500' => 'cil', 'CiPaw.04G153100' => 'cil', 'CiPaw.13G098700' => 'cil', 'CiPaw.14G071900' => 'cil', 'ClCG03G001910' => 'cla', 'ClCG08G004310' => 'cla', 'ClCG09G020100' => 'cla', 'COL.COLO4_17183' => 'col', 'COL.COLO4_18238' => 'col', 'COL.COLO4_18457' => 'col', 'COL.COLO4_26403' => 'col', 'Cpa.g.sc1.363' => 'cpa', 'Cpa.g.sc190.26' => 'cpa', 'Cpa.g.sc33.169' => 'cpa', 'Cre05.g234637' => 'cre', 'CsaV3_1G033650' => 'csa', 'CsaV3_4G031980' => 'csa', 'CsaV3_6G003760' => 'csa', 'CSS0003930' => 'camsi', 'CSS0005337' => 'camsi', 'CSS0008094' => 'camsi', 'CSS0012145' => 'camsi', 'CSS0017155' => 'camsi', 'CSS0018328' => 'camsi', 'CSS0018802' => 'camsi', 'CSS0031346' => 'camsi', 'CSS0035671' => 'camsi', 'CSS0043048' => 'camsi', 'CSS0049446' => 'camsi', 'DCAR_009312' => 'dca', 'DCAR_014834' => 'dca', 'DCAR_017886' => 'dca', 'DCAR_018885' => 'dca', 'Dinv25983' => 'din', 'Dinv25984' => 'din', 'Dinv25985' => 'din', 'Dinv31430' => 'din', 'Dinv37208' => 'din', 'Duzib106G1320' => 'dzi', 'Duzib114G0994' => 'dzi', 'Duzib128G0773' => 'dzi', 'Duzib168G0461' => 'dzi', 'Duzib168G0640' => 'dzi', 'Duzib170G0025' => 'dzi', 'Duzib187G1524' => 'dzi', 'ECA236G3233' => 'eca', 'ECA236G4101' => 'eca', 'ECA238G2877' => 'eca', 'ECA248G3023' => 'eca', 'EL10Ac2g03439' => 'bvu', 'EL10Ac4g09396' => 'bvu', 'EL10Ac7g15969' => 'bvu', 'Eucgr.A00084' => 'egr', 'Eucgr.G02917' => 'egr', 'FAN01G0518' => 'fan', 'FAN03G2490' => 'fan', 'FAN03G3428' => 'fan', 'FAN06G0852' => 'fan', 'FAN06G3866' => 'fan', 'FAN10G0011' => 'fan', 'FAN11G1099' => 'fan', 'FAN11G2955' => 'fan', 'FAN16G0216' => 'fan', 'FAN16G2802' => 'fan', 'FAN21G0100' => 'fan', 'FAN21G2015' => 'fan', 'FAN21G3765' => 'fan', 'FAN25G0777' => 'fan', 'FAN25G1156' => 'fan', 'FAN25G3084' => 'fan', 'FvH4_3g23910' => 'fve', 'FvH4_3g35110' => 'fve', 'FvH4_7g21650' => 'fve', 'Glyma.01G240000' => 'gma', 'Glyma.05G223500' => 'gma', 'Glyma.07G255500' => 'gma', 'Glyma.08G030600' => 'gma', 'Glyma.11G003600' => 'gma', 'Glyma.11G003700' => 'gma', 'Glyma.15G102550' => 'gma', 'Glyma.17G018600' => 'gma', 'Gohir.A01G125600' => 'ghi', 'Gohir.A01G130400' => 'ghi', 'Gohir.A03G039000' => 'ghi', 'Gohir.A05G028300' => 'ghi', 'Gohir.A05G097600' => 'ghi', 'Gohir.A07G095900' => 'ghi', 'Gohir.A08G244700' => 'ghi', 'Gohir.A10G198100' => 'ghi', 'Gohir.A13G228600' => 'ghi', 'Gohir.D01G119350' => 'ghi', 'Gohir.D03G129400' => 'ghi', 'Gohir.D05G029900' => 'ghi', 'Gohir.D05G097700' => 'ghi', 'Gohir.D07G100300' => 'ghi', 'Gohir.D08G265600' => 'ghi', 'Gohir.D10G205200' => 'ghi', 'Gohir.D13G234200' => 'ghi', 'Gorai.001G108200' => 'gra', 'Gorai.001G274900' => 'gra', 'Gorai.002G145700' => 'gra', 'Gorai.003G136100' => 'gra', 'Gorai.004G283600' => 'gra', 'Gorai.009G030100' => 'gra', 'Gorai.009G101300' => 'gra', 'Gorai.011G230200' => 'gra', 'Gorai.013G265000' => 'gra', 'Gorai.N020900' => 'gra', 'GSVIVG01016595001' => 'vvi', 'GSVIVG01016890001' => 'vvi', 'GSVIVG01025622001' => 'vvi', 'HanXRQChr04g0106961' => 'han', 'HanXRQChr05g0134231' => 'han', 'HanXRQChr06g0175811' => 'han', 'HanXRQChr08g0227641' => 'han', 'HanXRQChr08g0228181' => 'han', 'HanXRQChr11g0331881' => 'han', 'Haze_17031' => 'cav', 'Haze_17043' => 'cav', 'Haze_20740' => 'cav', 'Haze_24037' => 'cav', 'Haze_25872' => 'cav', 'Haze_25876' => 'cav', 'Haze_26955' => 'cav', 'Hma1.2p1_0573F.1_g181430' => 'hma', 'Hma1.2p1_0679F.1_g202300' => 'hma', 'Hma1.2p1_0727F.1_g209160' => 'hma', 'Hma1.2p1_2678F.1_g326780' => 'hma', 'HPP92_001080' => 'vpl', 'HPP92_006571' => 'vpl', 'HPP92_007229' => 'vpl', 'HPP92_025160' => 'vpl', 'HPP92_026828' => 'vpl', 'HPP92_028572' => 'vpl', 'Hund20017' => 'sun', 'Hund22235' => 'sun', 'Hund29515' => 'sun', 'Hund29516' => 'sun', 'Lalb_Chr07g0177401' => 'lal', 'Lalb_Chr13g0304061' => 'lal', 'Lalb_Chr15g0087311' => 'lal', 'Lalb_Chr18g0056011' => 'lal', 'Lalb_Chr20g0113471' => 'lal', 'Lalb_Chr20g0118361' => 'lal', 'Lj1g0026477' => 'lja', 'Lj3g0022924' => 'lja', 'Lj4g0010939' => 'lja', 'Lj4g0012840' => 'lja', 'Lj6g0018049' => 'lja', 'Lsat_1_v5_gn_0_37780' => 'lsa', 'Lsat_1_v5_gn_5_168601' => 'lsa', 'Lsat_1_v5_gn_6_15101' => 'lsa', 'Lsat_1_v5_gn_8_77621' => 'lsa', 'Manes.02G223700' => 'mes', 'Manes.04G031400' => 'mes', 'Manes.10G034000' => 'mes', 'Manes.11G133800' => 'mes', 'Manes.16G105000' => 'mes', 'Mapoly0013s0139' => 'mpo', 'Mapoly0083s0020' => 'mpo', 'MBI04_g06221_MAGBIO' => 'mbi', 'MBI05_g28550_MAGBIO' => 'mbi', 'MBI05_g38961_MAGBIO' => 'mbi', 'MBI14_g36719_MAGBIO' => 'mbi', 'MBI15_g02240_MAGBIO' => 'mbi', 'MBI15_g02241_MAGBIO' => 'mbi', 'MBI15_g02243_MAGBIO' => 'mbi', 'MBI15_g02244_MAGBIO' => 'mbi', 'MBI18_g33706_MAGBIO' => 'mbi', 'MCO01G079' => 'mco', 'MD01G1122600' => 'mdo', 'MD03G1099000' => 'mdo', 'MD03G1189800' => 'mdo', 'MD07G1192100' => 'mdo', 'MD11G1112900' => 'mdo', 'MD11G1206100' => 'mdo', 'Medtr1g105415' => 'mtr', 'Medtr4g094598' => 'mtr', 'Medtr4g117470' => 'mtr', 'Medtr8g101910' => 'mtr', 'MELO3C011626.2' => 'cme', 'MELO3C020704.2' => 'cme', 'MELO3C026975.2' => 'cme', 'Migut.D01151' => 'egut', 'Migut.D02130' => 'egut', 'Migut.I01001' => 'egut', 'Migut.N02664' => 'egut', 'MSTRG.11000' => 'ama', 'MSTRG.12633' => 'ama', 'MSTRG.12639' => 'ama', 'MSTRG.17841' => 'ama', 'MSTRG.18591' => 'ama', 'Nitab4.5_0000317g0160' => 'nta', 'Nitab4.5_0001530g0090' => 'nta', 'Nitab4.5_0001973g0040' => 'nta', 'Nitab4.5_0002189g0020' => 'nta', 'Nitab4.5_0002189g0050' => 'nta', 'Nitab4.5_0003218g0030' => 'nta', 'Nitab4.5_0004848g0020' => 'nta', 'Nitab4.5_0005026g0010' => 'nta', 'Nitab4.5_0005519g0070' => 'nta', 'Nitab4.5_0006071g0020' => 'nta', 'Nitab4.5_0006623g0010' => 'nta', 'Nn2g10453' => 'nnu', 'Nn2g12680' => 'nnu', 'Nn2g12907' => 'nnu', 'Oeu010191.1' => 'oeu', 'Oeu013376.1' => 'oeu', 'Oeu014436.1' => 'oeu', 'Oeu031815.1' => 'oeu', 'Oeu045664.1' => 'oeu', 'Oeu046991.1' => 'oeu', 'Oeu052810.1' => 'oeu', 'Os01g0153200' => 'osa', 'Os01g0237200' => 'osa', 'Os02g0255200' => 'osa', 'Os02g0478600' => 'osa', 'Os07g0208000' => 'osa', 'Peaxi162Scf00038g01321' => 'pax', 'Peaxi162Scf00066g00043' => 'pax', 'Peaxi162Scf00066g00423' => 'pax', 'Peaxi162Scf00335g01513' => 'pax', 'Peaxi162Scf00591g00053' => 'pax', 'PGR044G0361' => 'pgr', 'PGR044G1853' => 'pgr', 'PGR102G1326' => 'pgr', 'PGR142G1949' => 'pgr', 'PGSC0003DMG400002509' => 'stu', 'PGSC0003DMG400006493' => 'stu', 'PGSC0003DMG400013035' => 'stu', 'PGSC0003DMG400014299' => 'stu', 'PGSC0003DMG400023020' => 'stu', 'PGSC0003DMG400023022' => 'stu', 'PGSC0003DMG400025324' => 'stu', 'Phvul.002G048000' => 'pvu', 'Phvul.002G305300' => 'pvu', 'Phvul.003G095800' => 'pvu', 'Phvul.003G132300' => 'pvu', 'Phvul.006G155200' => 'pvu', 'Potri.001G118100' => 'ptr', 'Potri.003G114800' => 'ptr', 'Potri.008G051900' => 'ptr', 'Potri.009G071250' => 'ptr', 'Potri.009G071400' => 'ptr', 'Potri.010G208700' => 'ptr', 'Pp3c11_10490' => 'ppa', 'Pp3c16_5880' => 'ppa', 'Pp3c1_4290' => 'ppa', 'Pp3c2_32050' => 'ppa', 'Pp3c3_1140' => 'ppa', 'Pp3c4_27540' => 'ppa', 'Pp3c5_5750' => 'ppa', 'PRCOL_00002827' => 'pco', 'Prupe.2G230100' => 'ppe', 'Prupe.4G231400' => 'ppe', 'Prupe.6G083600' => 'ppe', 'Prupe.8G031000' => 'ppe', 'Psat4g030720' => 'psa', 'Psat6g209360' => 'psa', 'Psat7g018880' => 'psa', 'Psat7g048240' => 'psa', 'PSO210G1066' => 'pso', 'PSO339G2370' => 'pso', 'PSO339G3550' => 'pso', 'PSO339G4768' => 'pso', 'PSO384G1916' => 'pso', 'PSO648G0049' => 'pso', 'PSO648G0111' => 'pso', 'PSO761G0349' => 'pso', 'QL01p033107' => 'qlo', 'QL02p063444' => 'qlo', 'QL02p071249' => 'qlo', 'QL07p024528' => 'qlo', 'QL08p058924' => 'qlo', 'RcHm_v2.0_Chr1g0316631' => 'rch', 'RcHm_v2.0_Chr1g0317511' => 'rch', 'RcHm_v2.0_Chr1g0319681' => 'rch', 'RcHm_v2.0_Chr1g0324641' => 'rch', 'RcHm_v2.0_Chr1g0365891' => 'rch', 'RcHm_v2.0_Chr2g0133731' => 'rch', 'RcHm_v2.0_Chr3g0464201' => 'rch', 'RcHm_v2.0_Chr3g0469841' => 'rch', 'RcHm_v2.0_Chr3g0472351' => 'rch', 'RcHm_v2.0_Chr3g0475511' => 'rch', 'RcHm_v2.0_Chr4g0408461' => 'rch', 'RcHm_v2.0_Chr5g0042421' => 'rch', 'RcHm_v2.0_Chr5g0050281' => 'rch', 'RcHm_v2.0_Chr5g0055271' => 'rch', 'RcHm_v2.0_Chr5g0063111' => 'rch', 'RcHm_v2.0_Chr7g0183941' => 'rch', 'Rhsim03G0129000' => 'rsi', 'Rhsim08G0231500' => 'rsi', 'Rhsim09G0164200' => 'rsi', 'Sabra01G0090800' => 'sbr', 'Sabra08G0037200' => 'sbr', 'Sabra10G0161200' => 'sbr', 'SalBow1G6600' => 'sbo', 'SalBow1G7225' => 'sbo', 'SalBow2G1040' => 'sbo', 'SalBow2G1296' => 'sbo', 'SalBow3G0498' => 'sbo', 'SalBow3G0985' => 'sbo', 'SalBow3G2458' => 'sbo', 'SalBow3G2612' => 'sbo', 'SalBow6G5325' => 'sbo', 'SalBow6G6006' => 'sbo', 'Sc06g0002700' => 'sci', 'Sc12g0001660' => 'sci', 'Sc14g0000810' => 'sci', 'Sc23g0004900' => 'sci', 'Sed0004141' => 'sed', 'Sed0004725' => 'sed', 'Sed0016024' => 'sed', 'Sed0023649' => 'sed', 'Sed0023938' => 'sed', 'SEGI_01657' => 'sgi', 'SEGI_05421' => 'sgi', 'SEGI_11551' => 'sgi', 'SGA_v2.0_scaffold134G34698' => 'sas', 'SGA_v2.0_scaffold180G39632' => 'sas', 'SGA_v2.0_scaffold263G46015' => 'sas', 'SGA_v2.0_scaffold45G16991' => 'sas', 'SGA_v2.0_scaffold61G21251' => 'sas', 'SGA_v2.0_scaffold71G23748' => 'sas', 'SHI02812' => 'shi', 'SHI08113' => 'shi', 'SMO147G0290' => 'smo', 'SMO247G0002' => 'smo', 'SMO347G0245' => 'smo', 'Solyc03g121370.3' => 'sly', 'Solyc04g150158.1' => 'sly', 'Solyc04g150159.1' => 'sly', 'Solyc12g044730.2' => 'sly', 'Sopen03g040180' => 'spe', 'Sopen04g025860' => 'spe', 'Sopen04g026010' => 'spe', 'Sopen04g026020' => 'spe', 'Sp1g06420' => 'spa', 'Sp3g33050' => 'spa', 'Sp5g15560' => 'spa', 'Sp6g21540' => 'spa', 'Sp7g27310' => 'spa', 'TAR365G1236' => 'tar', 'TAR369G0095' => 'tar', 'TAR376G1206' => 'tar', 'TAR623G0114' => 'tar', 'TAR623G0899' => 'tar', 'TAR626G1055' => 'tar', 'TAR636G0824' => 'tar', 'TAR636G1665' => 'tar', 'TAR636G2187' => 'tar', 'TAR636G2316' => 'tar', 'THA.LOC104799783' => 'tha', 'THA.LOC104803989' => 'tha', 'THA.LOC104806663' => 'tha', 'THA.LOC104809034' => 'tha', 'THA.LOC104810027' => 'tha', 'THA.LOC104810810' => 'tha', 'THA.LOC104814862' => 'tha', 'THA.LOC104820030' => 'tha', 'THA.LOC104824272' => 'tha', 'Thecc.09G094000' => 'tca', 'Thecc.09G327100' => 'tca', 'Thecc.09G344100' => 'tca', 'Thecc.09G344400' => 'tca', 'Thecc.10G104200' => 'tca', 'Thecc.10G104300' => 'tca', 'Thhalv10002722m.g' => 'esa', 'Thhalv10009092m.g' => 'esa', 'Thhalv10015007m.g' => 'esa', 'Thhalv10017604m.g' => 'esa', 'Thhalv10026559m.g' => 'esa', 'TPR.G17613' => 'tpr', 'TPR.G20130' => 'tpr', 'TPR.G25480' => 'tpr', 'TPR.G37373' => 'tpr', 'TWI75G1491' => 'twi', 'TWI79G0913' => 'twi', 'TWI79G1211' => 'twi', 'TWI79G1657' => 'twi', 'unitig_0.g232' => 'ugi', 'unitig_60.g25686' => 'ugi', 'unitig_736.g22437' => 'ugi', 'unitig_747.g22024' => 'ugi', 'unitig_748.g7453' => 'ugi', 'vmacro03107' => 'vma', 'vmacro07155' => 'vma', 'vmacro11325' => 'vma', 'vmacro14508' => 'vma', 'vmacro18820' => 'vma', 'vmacro20885' => 'vma', 'vmacro22537' => 'vma', 'vmacro22849' => 'vma', 'VMungo0251G3781' => 'vmu', 'VMungo0540G0284' => 'vmu', 'VMungo1215G1704' => 'vmu', 'VMungo1215G2061' => 'vmu', 'Zm00001eb119260' => 'zma', 'Zm00001eb180400' => 'zma', 'Zm00001eb199800' => 'zma', 'Zm00001eb305140' => 'zma', 'Zm00001eb339270' => 'zma', 'Zm00001eb387880' => 'zma', 'Zm00001eb392950' => 'zma' ) $gf_id = 'HOM05D001096' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001096' ) $data_identifier = 'HOM05D001096' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 7, 'arhy' => (int) 9, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 4, 'cqu' => (int) 6, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 6, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 2, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 8, 'ghi' => (int) 17, 'gra' => (int) 10, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 7, 'hma' => (int) 4, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 9, 'mco' => (int) 1, 'mdo' => (int) 6, 'mtr' => (int) 4, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 5, 'nta' => (int) 11, 'nnu' => (int) 3, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 5, 'ptr' => (int) 6, 'ppa' => (int) 7, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 16, 'rsi' => (int) 3, 'sbr' => (int) 3, 'sbo' => (int) 10, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 10, 'tha' => (int) 9, 'tca' => (int) 6, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 8, 'vmu' => (int) 4, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392950' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1